Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,978,503	Δ776 bp		insB1–insA	insB1, insA

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1978503	1979278	776	38 [0]	[0] 38	insB1–insA	insB1,insA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1978502	0 (0.000)	38 (1.500)	36/268	0.0	100%	intergenic (‑305/+16)	flhD/insB1	flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B
	?	NC_000913	1979279 =	0 (0.000)					intergenic (‑64/‑474)	insA/uspC	IS1 repressor TnpA/universal stress protein

GGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAAT  >  NC_000913/1979141‑1979411                                                                                                                                           |                                                                                                                                     ctttacacttatctaagatttttcctaaatcgacgaaactgtactcgtcactacacgcacatacaacggaggggtgctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATaa                                                                                                                                  <  1:158694‑M2/5‑1 (MQ=255)   gtacacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGt                                                                                                                                <  2:108651‑M2/7‑1 (MQ=255)             ctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACttttg                                                                                                                      >  2:220912‑M2/127‑143 (MQ=255)                  gtttttcctagatcgaggcgtctgtcctcgtctctacacgcacatacagcggaggggggctgcgattttcaataatgcgtgatgcagatcacacaatacactcaattacttaacataaatgTATAAGTCATACttttgttttg                                                                                                                 <  2:402083‑M2/22‑1 (MQ=255)                   tttttcctaaatcgacgcaactgtactcgtcactgcacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaacacactcaattacttaacataactgTATAACTCATACTTTTGTTTTgg                                                                                                                >  2:31863‑M2/121‑143 (MQ=255)                   tttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTgg                                                                                                                <  1:319096‑M2/23‑1 (MQ=255)                   tttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTgg                                                                                                                <  1:323229‑M2/23‑1 (MQ=255)                           aaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTAttt                                                                                                        >  1:267528‑M2/113‑143 (MQ=255)                             atcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacctaaatgTATAAATCATACTTTTGTCTTGGGTGTATTTCa                                                                                                      >  2:469116‑M2/111‑143 (MQ=255)                                   gcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGt                                                                                                <  1:440322‑M2/39‑1 (MQ=255)                                   gcaactgtactcgtcactacacgcacataaaaaggaggggggctgcgattttcaataatgcgagatgcagatcacacaaaacactcaattacttaaaataaatgTATAAGACAGACTATTGATTTAGGTGTAGTTTAATATGt                                                                                                >  2:294187‑M2/105‑143 (MQ=255)                                          tactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAg                                                                                         <  1:249079‑M2/46‑1 (MQ=255)                                           actcgtcactacacgcacatacaacggaggggggctgcgattttcaataatacgtaatgcagaacacaaaaaacactcaattacttaaaataaatgTATAAGTCATAATTTTGTATGTGGTGTATTTCAATATGTAAAAAaga                                                                                        >  2:128379‑M2/97‑142 (MQ=255)                                             tcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTAGTTTTGGGTGTATTTCAATCTGTTAAAAAGttt                                                                                      >  1:328904‑M2/95‑143 (MQ=255)                                               gtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAAGCGGGTAATACGttttt                                                                                    >  1:86531‑M2/93‑143 (MQ=255)                                                  actacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGATTTTcgc                                                                                 >  2:324428‑M2/90‑143 (MQ=255)                                                       acgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTGTTTCAATCTGTTAAAAAGTTTTTcgctacgc                                                                            >  1:94382‑M2/85‑143 (MQ=255)                                                         gcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACATTTGTTTTGGAGCGACGTCAATCAGTTAAAAAGTTTTTcgctacgcta                                                                          >  2:212789‑M2/83‑143 (MQ=255)                                                         gcacagacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctacgcta                                                                          <  1:73071‑M2/61‑1 (MQ=255)                                                           acatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTagc                                                                        <  1:322975‑M2/63‑1 (MQ=255)                                                           acatacaacggaggggggctacgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTATGTTTTGGGTGTATTTCAATCTGTTAACAACTTTttcgctacgctaca                                                                        >  2:41157‑M2/81‑141 (MQ=255)                                                                         ggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactgaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGaaa                                                          >  1:463479‑M2/67‑143 (MQ=255)                                                                         ggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCAGACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGaaa                                                          <  1:379163‑M2/77‑1 (MQ=255)                                                                                        aataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGaaa                                           >  2:231327‑M2/52‑143 (MQ=255)                                                                                              gcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAAAAGGAATAATCGACATGGgaa                                     >  2:424073‑M2/46‑142 (MQ=255)                                                                                                gtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATAAAaatgagagtg                                   >  1:63358‑M2/44‑140 (MQ=255)                                                                                                  gatggagagcacacaaaaatatcaatgatttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAGAAAGTTTTTCGCTACGATAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTg                                 <  2:463479‑M2/102‑1 (MQ=255)                                                                                                   atgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTgc                                <  1:266004‑M2/103‑1 (MQ=255)                                                                                                            acacaaaacactcaattacttaacataaatgTATAAGTCAGACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCa                       <  1:469333‑M2/112‑1 (MQ=255)                                                                                                            acaaaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTACTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCa                       <  2:239276‑M2/112‑1 (MQ=255)                                                                                                               caaaacacgcaattacttaacataaatgTAGAAGTCATACTGTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCaaaa                    <  1:57132‑M2/115‑1 (MQ=255)                                                                                                                  accactcacttacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAAGCGGGTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATaa                 <  1:129575‑M2/118‑1 (MQ=255)                                                                                                                  aacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCACAAATAAAACAGGAATAATCGAAATGAGATGTTGCGCACAGTCAACATaa                 >  2:261833‑M2/26‑143 (MQ=255)                                                                                                                       tcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAacacac            >  2:83360‑M2/21‑143 (MQ=255)                                                                                                                          attacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAACAGTTTTTCGCTACGCTAGCAAGAAAAAACGAAACAAAAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGt         >  2:290541‑M2/18‑143 (MQ=255)                                                                                                                               ttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCTAGATAACTCACCGTAaata    >  1:8381‑M2/13‑143 (MQ=255)                                                                                                                               ttaacagaaatgTAGAAGGCATACTGTTGTGGTGGGTGTAGTTCAAGCGGTTAAAGAGTTTTGCGCTACGCGAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAaata    <  2:117936‑M2/131‑1 (MQ=255)                                                                                                                                 aacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAaataat  >  2:93816‑M2/11‑143 (MQ=255)                                                                                                                                           |                                                                                                                                     GGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAAT  >  NC_000913/1979141‑1979411

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑